Hmmmm
Yep- the few books I bought on the Apple site (very few, pickings are sparse there) no longer open- I'm told to do a restore of my device.

I don't think so.
Everything else I have on there that is not purchased from Apple (public domain) works fine. Since I use Kindle much more (MANY more books available to purchase for that device), it seems to me the Apple (for good or bad reasons) is only harming the future growth of their bookstore/device. Too bad, as the "readability" of material on iBooks is nicer than using the Kindle app.
As to the argument above re Apple's role in "protecting" the rights of the copyright holders, I don't see the logic of the argument. I purchased the content, how I access it should not be an issue unless I attempt/succeed in illegally distributing it. (And, as a teacher, I have the right to do all kinds of things to/with content for use in my classroom.) The platform I use should not be an issue in and of itself. The Library of Congress has held that jailbreaking your phone or other device is legal. Oh, wait, the LOC is in charge of printed matter in the US, correct? I don't think this is cat and mouse, I think this is an outright attempt by Apple to mess with the rights of legal jailbreakers to use their purchased content on their legal devices. This is just as illegal under current law as DVD manufacturing houses preventing us from making ONE backup of our media. Just because they can does not mean they should, or that it is legal. I would expect that it would be hard for Apple to prove in court that the mere fact that a device is legally jailbroken negates the user's right to access previously purchased material. Let alone someone not knowing about this and going out today and buying three books for use on their iPad and then discovering they will not work. It will be interesting to see this play out in court.
BTW, ALL the material on my devices is purchased, I run no cracked apps or otherwise flout the law. Does Apple assume that, by jailbreaking my device I am automatically not to be trusted?